March 2014 Commit Log

Number of Commits:
68
Number of Active Developers:
12
beckvermit 2014-03-31 16:21 Rev.: 51691

solid mass was calculated incorrectly when clamping the burned mass in the cell to the total convertable mass in the cell

7 lines of code changed in 1 file:

jthornoc 2014-03-29 21:25 Rev.: 51689

Reverting this part of the turbulence model due to convergence problems.

31 lines of code changed in 1 file:

jthornoc 2014-03-28 15:43 Rev.: 51685

Removed old, commented-out code.
Removed some unused variables.

37 lines of code changed in 1 file:

jthornoc 2014-03-28 15:43 Rev.: 51684

*This commit will change answers for tests using the dynamic model*
Some optimizations on the dynamic model and filter operators. Also includes some code cleanup.

921 lines of code changed in 3 files:

harman 2014-03-28 13:06 Rev.: 51682

added bulletproofing and made it more user friendly.

0 lines of code changed in 2 files:

tsaad 2014-03-26 14:20 Rev.: 51680

add performance test for a scalar (no hypre)

5 lines of code changed in 1 file:

ahumphrey 2014-03-26 09:28 Rev.: 51679

Back out 'domain boundary condition summary' modifications.
Will soon use proc0thread0cout macro for coherent multi-threaded output.

6 lines of code changed in 2 files:

jas 2014-03-26 08:57 Rev.: 51678

Remove the inclusion of openmp for OSX.

6 lines of code changed in 2 files:

colovos 2014-03-25 17:54 Rev.: 51676

Added new rate dependence code and benchmarks along with corrected initial timestep calculation. Cleaned up what is printed to the output files

108 lines of code changed in 2 files:

jthornoc 2014-03-25 15:11 Rev.: 51674

This should fix any segfaults that may occur with the Turbulence model
(or the lack thereof) that resulted from my previous commit.

19 lines of code changed in 4 files:

jthornoc 2014-03-25 15:11 Rev.: 51673

Cleanup a few minor issues with the Turbulence model. Also added a box
filter to the mix.

315 lines of code changed in 10 files:

harman 2014-03-25 14:08 Rev.: 51672

House cleaning. Removed dependency on libpng.


19 lines of code changed in 20 files:

jas 2014-03-25 09:27 Rev.: 51671

Modify configure test to use -openmp for OSX

20 lines of code changed in 2 files:

tsaad 2014-03-20 23:07 Rev.: 51666

fix bug that shows up with assertion levels >= 3

0 lines of code changed in 2 files:

jsutherland 2014-03-20 13:52 Rev.: 51665

When SCI_DEBUG = WASATCH_TASKS:+ this will add a lot more information to the graphs emitted by Wasatch.

3 lines of code changed in 1 file:

jsutherland 2014-03-20 07:35 Rev.: 51661

Fix a bug on the turbulent viscosity expression initialization.

5 lines of code changed in 2 files:

tsaad 2014-03-18 12:50 Rev.: 51659

relax the tolerance a bit on the Wasatch failing test

3 lines of code changed in 1 file:

jas 2014-03-18 12:04 Rev.: 51658

Update includes to eliminate C linkage with Petsc 3.4 version includes.

23 lines of code changed in 5 files:

tsaad 2014-03-17 14:12 Rev.: 51656

apply nebo syntax to the dissolution source term

0 lines of code changed in 2 files:

harman 2014-03-14 16:54 Rev.: 51652

added {} to conditionals
reduceUdaSetup()
--remove the file (checkpoint/index.xml) before copying the checkpoint directory to the new uda.
That file is created upstream when it shouldn't be.

6 lines of code changed in 1 file:

mhomel 2014-03-13 16:38 Rev.: 51641

added arenisca 3&4

14 lines of code changed in 1 file:

mhomel 2014-03-13 16:38 Rev.: 51640

Added arenisca 3&4

30 lines of code changed in 1 file:

mhomel 2014-03-13 16:37 Rev.: 51639

Adding source for arenisca v4 MPM constitutive model with 3rd invariant dependence

2445 lines of code changed in 2 files:

mhomel 2014-03-13 16:36 Rev.: 51638

Adding source for Arenisca 3 MPM consitutive model generalized return

2445 lines of code changed in 2 files:

ahumphrey 2014-03-13 16:07 Rev.: 51637

Fix ScrubItem allocation issues. No longer use TrivialAllocator.
Also add more { }

77 lines of code changed in 4 files:

ahumphrey 2014-03-13 13:24 Rev.: 51636

Fix compiler error related to ScrubItem instantiation.

1 lines of code changed in 1 file:

harman 2014-03-13 12:27 Rev.: 51635

is_BC_specified()
-fixed copy paste error when checking if both a periodic BC and a normal BC has been specified

0 lines of code changed in 2 files:

ahumphrey 2014-03-13 08:58 Rev.: 51634

Fix memory leak in scrubCountTable. This fixes the primary memory leak that was not allowing regridding on larger-scale AMR runs. Also some taskgraph code cleanup and adding { }.

193 lines of code changed in 3 files:

tsaad 2014-03-12 23:39 Rev.: 51633

enforce scalar_rhs = 0 in extra cells to avoid nans there which eventually mess up the visualization.

58 lines of code changed in 2 files:

harman 2014-03-12 14:54 Rev.: 51632

Spring cleaning, removed code from the days of SCIRun.

0 lines of code changed in 10 files:

harman 2014-03-12 13:58 Rev.: 51631

problemSetup()
- changed ostringstream statements to proc0cout so the warnings will actually be displayed.

16 lines of code changed in 1 file:

harman 2014-03-12 12:42 Rev.: 51630

Global:
- The virtual radiometer min/max points are specified in physical units, not cell indices.
- Removed Control characters

VirtualRadiometer:
- Assemble an interator that loops over the extent of the min -> max points. Previously,
there was a conditional statement inside a loop over all cells.

* This commit should not change the answers

57 lines of code changed in 2 files:

harman 2014-03-11 15:30 Rev.: 51628

For consistency the prefix for all global variables is "d_"
Removed comments that were no longer relevant.

173 lines of code changed in 3 files:

harman 2014-03-11 13:36 Rev.: 51625

This script loops through a series of udas and executes
sus -reduce_uda <uda>
on them. It modifies the input.xml file and copies the On-The-Fly directories and output files to
the diet.uda.

For the usage type

udaDietscript -h

Example:
src/scripts/udaDietscript --np 32 --uda 'uda.000 uda.001 uda.002' --other 'dir1 dir2'

The file "NewDataArchive" must exist and contain the following
data archiver variables:


<filebase> dietName.uda </filebase>"
<save label="press_CC"/>"
<save label="vol_frac_CC"/>
.
.
.


201 lines of code changed in 1 file:

tsaad 2014-03-10 17:11 Rev.: 51623

add turbulent flow over open cavity test

3 lines of code changed in 1 file:

tsaad 2014-03-10 17:11 Rev.: 51622

use problemSpec::get instead of getWithDefault for one of the TransportEquation attribute (e.g. form). This was a bug that will show up when restarting.

2 lines of code changed in 1 file:

harman 2014-03-07 17:31 Rev.: 51620

reduceUdaSetup()
- set the next checkpoint timestep = SHRT_MAX
This will fix the checkpoint/index.xml overwrite bug when using reduceUda.

2 lines of code changed in 1 file:

jsutherland 2014-03-07 07:38 Rev.: 51619

Disable BasicScalarTransportEq_2L test on GPU since it is failing debug builds and we don't really need to support multilevel calculations on GPU in Wasatch currently.

0 lines of code changed in 1 file:

dav 2014-03-06 19:29 Rev.: 51618

Fixed a number of warnings. ICC compiler pointed out a number of
times where functions where returning "const int" (or some such), and
that it does not make any sense to return a const number, as the
caller can do what they want with the result. (This removes 1000s of
warning messages during compilation.)

(I assume that the author did not mean to put the "const" after the
function name? It didn't appear that this was what was desired, but
perhaps he/she could take a look?)

Also, removed a lot of stray ';'s (semi-colons). Seems like someone
just randomly through them in without knowing what lines require them
and what lines do not. I only removed the ones near the locations of
the "const" return values, but there are probably many more that
should be cleaned up.

M TransportEqns/EqnBase.h

Removed const from return value of get_stage().

M Radiation/RadPropertyCalculator.h
M Radiation/RadPropertyCalculator.cc

Removed const from return value of does_scattering().

M SourceTerms/SourceTermBase.h

Removed const from return value of stage_compute().

27 lines of code changed in 4 files:

ahumphrey 2014-03-06 12:40 Rev.: 51615

Standardize reporting output of printf and std::cout when dealing with pointers, etc between GPUDataWarehouse and UnifiedScheduler (%p == std:hex).

NOTE: only printf can be used on the device. This has caused some issues lately when using std::cout in host code, e.g. DebugStreams such as GPUStats.

42 lines of code changed in 3 files:

harman 2014-03-05 18:21 Rev.: 51612

- detect if a symbolic link is used and correctly set the path.
- use "basename" instead of the variable modifier :t
- cleaned up output

0 lines of code changed in 2 files:

jthornoc 2014-03-05 11:55 Rev.: 51609

Forcing one pressure A-matrix setup.

Adding input file and updating spec.

4 lines of code changed in 1 file:

jthornoc 2014-03-05 11:08 Rev.: 51608

- Computing reference density once rather than every time step to avoid a reduction operation
- Reference density is now specified as a user input using the appropriate option given the property calculation.
- Added a single IV transform function for the classic-table interface.
- Don’t use cellInfo for pressure coefficient calculations.
- Fix a typo in the logic comparison for the advanced clipping.
- Updating a slew of input files to meet spec.

370 lines of code changed in 21 files:

jthornoc 2014-03-05 11:08 Rev.: 51607

Specifying the reference density uniformly across property calculations.

**This now requires that the reference density either be in a flow cell
or explicitly set from the input file.

34 lines of code changed in 5 files:

jthornoc 2014-03-05 11:08 Rev.: 51606

1) Remove some unused WARCHES code.
2) Rename the setVel function.
3) Set correct volume fraction in extra-cells and update code accordingly to account for the zero volume fraction in walls.
4) Require that the reference density is computed in a “real” flow cell
5) Add some new channel flow input files.

22 lines of code changed in 4 files:

jthornoc 2014-03-05 11:08 Rev.: 51603

Need two ghosts for volume fraction.
Fix the x-z almgren momentum initialization.

4 lines of code changed in 2 files:

jthornoc 2014-03-05 11:08 Rev.: 51602

Various modification to accomodate some optimizations in the fortran and
c++ functions for the momentum RHS construction.

1401 lines of code changed in 51 files:

jthornoc 2014-03-05 11:08 Rev.: 51600

Simplifying the momentum RHS construction (fortran coeffs) by
1) Cleaning up the fortran
2) Allowing for upwind-only, central-only, and mixed fortran functions.

2022 lines of code changed in 26 files:

jthornoc 2014-03-05 11:08 Rev.: 51599

Whoops. Reversing an earlier commit that was suppose to fix a
conversion factor. Turns out it was correct all along.

1 lines of code changed in 1 file:

jthornoc 2014-03-05 11:08 Rev.: 51598

To get the residence time to work properly, you must be solving the
transport equation post table-lookup and be using the new density for
the RHS to get the correct time.

8 lines of code changed in 1 file:

jthornoc 2014-03-05 11:08 Rev.: 51597

Fixing a typo in the previous unit conversion update for the NOx model.

Adding a density weighting option for the constant source term to enable
residence time calculations for variable density.

43 lines of code changed in 4 files:

jthornoc 2014-03-05 11:08 Rev.: 51596

Use MW of NO rather than NO2 for the NOx model.

1 lines of code changed in 1 file:

jthornoc 2014-03-05 11:08 Rev.: 51595

More clarity on the error message.

1 lines of code changed in 1 file:

jthornoc 2014-03-05 11:07 Rev.: 51594

Fix a warning.

6 lines of code changed in 1 file:

jsutherland 2014-03-05 07:56 Rev.: 51593

reactivate GPU tests in Wasatch now that we have the memory bug fixed.

3 lines of code changed in 1 file:

jsutherland 2014-03-05 07:16 Rev.: 51592

Commit on behalf of Abhishek.
This uses the new interface for "computes" that Qingyu just put in to allow proper ghost cell allocations on GPU.

4 lines of code changed in 1 file:

qymeng 2014-03-04 17:32 Rev.: 51591

add computesWithScratchGhost for Wasatch

37 lines of code changed in 2 files:

jsutherland 2014-03-03 20:59 Rev.: 51590

More cleanup to remove some warnings and fix some stylistic issues.

23 lines of code changed in 4 files:

jsutherland 2014-03-03 20:40 Rev.: 51589

Minor cleanup on FieldAdaptor

21 lines of code changed in 2 files:

jsutherland 2014-03-03 20:13 Rev.: 51588

Commit on Abhishek's behalf to handle Uintah events properly in the case of GPU enabled tasks.

87 lines of code changed in 1 file:

jsutherland 2014-03-03 20:13 Rev.: 51587

silence a warning.

0 lines of code changed in 1 file:

harman 2014-03-03 16:35 Rev.: 51585

added on/off switch (applyHydrostaticPressure). The default is "on" but for
difficult problems it's useful to turn it off.


61 lines of code changed in 4 files:

harman 2014-03-03 13:21 Rev.: 51584

Removed code that hasn't been used in years.

0 lines of code changed in 6 files:

guilkey 2014-03-03 10:54 Rev.: 51583

Move MPM specific helper programs to scripts/MPM.

252 lines of code changed in 4 files:

harman 2014-03-03 08:44 Rev.: 51582

Fixed parsing and added a counter for the number of varlabels that were not
deleted.

0 lines of code changed in 2 files:

tsaad 2014-03-02 23:10 Rev.: 51581

remove a cout statement

0 lines of code changed in 1 file:

tsaad 2014-03-02 23:10 Rev.: 51580

forgot to commit the expression that I mentioned in my previous commit.

172 lines of code changed in 1 file:

tsaad 2014-03-02 19:21 Rev.: 51579

Add an expression that is uses geometry primitives to specify values in the domain. Why didn't I do this before? Anyway, this will allow us to set values on a field using geometry primitives with interior values specified in the spec. Remove the PlusProfile and CylinderPatch expressions now that we can achieve those initializations using this new expressions. Limitations: (1) cell-centered fields only at the moment, (2) constant values only inside geom_objects.

The best thing about a boolean is even if you are wrong, you are only off by a bit. (Anonymous)

24 lines of code changed in 3 files:

February 2014 »

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